introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

8 rows where transcript_id = 18602099

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
99339675 GT-AG 0 1.351227092943475e-05 929 rna-XM_037637001.1 18602099 2 1316947 1317875 Jatropha curcas 180498 TTG|GTAAGTTCGA...AATACTTTACTG/TACTGGTTCACT...CTCAG|GTT 1 1 33.841
99339676 GT-AG 0 1.000000099473604e-05 90 rna-XM_037637001.1 18602099 3 1316730 1316819 Jatropha curcas 180498 CAG|GTTAGATGCT...TTCTCGTTGACT/ATATCTCTTATA...TTCAG|ATT 2 1 44.585
99339677 GT-CA 0 0.0105727747829566 1786 rna-XM_037637001.1 18602099 4 1314882 1316667 Jatropha curcas 180498 CAG|GTAACTTTCC...GTGGTTTTGATG/CTATTTGTTATC...TTGCA|GGG 1 1 49.831
99339678 GT-AG 0 0.0657823382977751 223 rna-XM_037637001.1 18602099 6 1314491 1314713 Jatropha curcas 180498 AAC|GTATTTAATC...ATTTTCTTACCT/GATTTTCTTACC...CACAG|GTC 0 1 63.959
99339679 GT-AG 0 0.001009421209908 2272 rna-XM_037637001.1 18602099 9 1312074 1314345 Jatropha curcas 180498 TAG|GTATGTTACT...CTTTTATTAATT/CTTTTATTAATT...ATTAG|GGT 2 1 76.058
99339680 GT-AG 0 1.000000099473604e-05 1171 rna-XM_037637001.1 18602099 10 1310831 1312001 Jatropha curcas 180498 CTT|GTGAGTATCT...ACTTCTTTAGTT/TGAAATCTAACT...TGCAG|GTA 2 1 82.149
99339681 GT-AG 0 8.224301473582303e-05 678 rna-XM_037637001.1 18602099 11 1310044 1310721 Jatropha curcas 180498 CAG|GTATTACTAA...TTTTGCTTATCA/ATTTTGCTTATC...TGCAG|GAA 0 1 91.371
99339766 GT-AG 0 1.2141536951185252e-05 1106 rna-XM_037637001.1 18602099 1 1317975 1319080 Jatropha curcas 180498 TAG|GTACTATATT...GCTCCTGTGATC/CCTGTGATCATA...TGTAG|TGA   0 25.888

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);